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<th>estimate_response</th>
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<h2>Description</h2>
<p>
estimate the fibre response function for use in spherical deconvolution.
</p>
<p class=indented><strong>syntax:</strong> &nbsp; &nbsp; estimate_response [ options ] dwi mask response </p>
<h2>Arguments</h2>
<table class=args>
<tr><td><b>dwi</b></td>
<td>the input diffusion-weighted images.</td></tr>
<tr><td><b>mask</b></td>
<td>the mask image of the voxels assumed to contain a single fibre population.</td></tr>
<tr><td><b>response</b></td>
<td>the output text file where the even l, m=0 SH coefficients of the response function will be stored.</td></tr>
</table>
<h2>Options</h2>
<table class=args>
<tr><td><b>-grad</b>&nbsp;<i>encoding</i></td>
<td>specify the diffusion-weighted gradient scheme used in the acquisition. The program will normally attempt to use the encoding stored in image header.
<table class=opts>
<tr><td><i>encoding</i></td>
<td>the gradient encoding, supplied as a 4xN text file with each line is in the format [ X Y Z b ], where [ X Y Z ] describe the direction of the applied gradient, and b gives the b-value in units (1000 s/mm^2).</td></tr>
</table></td></tr>
<tr><td><b>-lmax</b>&nbsp;<i>order</i></td>
<td>set the maximum harmonic order to be estimated. By default, the program will use the highest possible lmax given the number of diffusion-weighted images.
<table class=opts>
<tr><td><i>order</i></td>
<td>the maximum harmonic order to use.</td></tr>
</table></td></tr>
<tr><td><b>-normalise</b></td>
<td>normalise the DW signal to the b=0 image</td></tr>
<tr><td><b>-info</b></td>
<td>display information messages.</td></tr>
<tr><td><b>-quiet</b></td>
<td>do not display information messages or progress status.</td></tr>
<tr><td><b>-debug</b></td>
<td>display debugging messages.</td></tr>
<tr><td><b>-help</b></td>
<td>display this information page and exit.</td></tr>
<tr><td><b>-version</b></td>
<td>display version information and exit.</td></tr>
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